DreINT0069084 @ danRer10
Intron Retention
Gene
ENSDARG00000012586 | fmnl2a
Description
formin-like 2a [Source:ZFIN;Acc:ZDB-GENE-081105-70]
Coordinates
chr9:4829839-4831664:-
Coord C1 exon
chr9:4831581-4831664
Coord A exon
chr9:4829995-4831580
Coord C2 exon
chr9:4829839-4829994
Length
1586 bp
Sequences
Splice sites
5' ss Seq
CACGTAAGT
5' ss Score
10.16
3' ss Seq
TTATGTGTTGTGCTTTACAGGTA
3' ss Score
11.75
Exon sequences
Seq C1 exon
ATGGGTGCGGGAGTTTCTGAATGAGGAGAACAAGGGTTTGGATGTGTTGGTGGAGTATCTTTCGTTTGCACAGTATGCTGTCAC
Seq A exon
GTAAGTCACCCGTGATTGTCCCGAACATGAACACAATGAACACAATGGCTCCTTTCACTCCCAATGCTGCTGAGTCTGTGTGTGGCTCTGACTACATGCCCTACTGCTGCTCTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCAGACTGTTCACTGAAATCAAGTCACAAGATCTCATTTACGACCAAATAGCACTCTGCTGATAAGAAATGATCATGTTTTAGTGGGTTTTGGAGAAAAAGACTGTTATCACAGTCACCCCAACACCTCATTACAACACACTAACCTCTGTTTAGGGTTGGTAAGATTGTTTACTTATGACTTATGGGACAAAAAAGACCCGGACACCATTTTAACAACAGACAAAAACAAAACTAAACAATGTTTCTTTAAATGTTGAAATTTGGTGAGTTTTTCTAAAACAACCCCATTAGAAAAAAATTATCAATTTCTATTTTAATGAAGGCTGTGCACATTTAGGGTACTTTGGGTACACTTAGTTGATTTGGAATACATTAAAACATTAAAAACATATTCATTCATTCATTTTCTTGTCGGCTTAGTCCTTTCATTAATCCGGGGTCGCCACAGCGGAATGAACCGCCAACTTATCCAGCATGTTTTTACGCAGTGGATGCCCTTCCAGCCGCAACCCATCTTTGGGAAACATACACACACACACACACACACACACACAAACACACACACACACACACACACACAAACACACACACACACACACACACACACACACACACACACACACACACACACTACGGACAATTTAGCCTACCCAGTTCACTTGTGCCACATGTCTTTAGACTGTGGGGGAAACCGGAGCACCCGGAGGAAACCCACGTGAACGCAGGGAGAACATGCAAACTCCACACAGAAATACCAACTGACCCAGCCGAGGCTCGAATCAGCGACCCAGCGACCTTCTTGCAATGAGGCGACAGCACTACCTACTGCGCCAAAACACCACCGGGCTAATAATTTTGACCTTAAAATGTTTTTTGAAAAATTTAAAACTGCTTTTATTCTAGCCGAAATAAAACAAATAAGACTTTCTTCAGAAGAAAAAATAATATCAAGCATACTGTGAAAATGTTCTTGCTCTGTTAAACATCTTTTGGGAAATATTTAAAAATATAAAAAACAAAGGTGGCTAATAATTCTCATTTCAACTGTATATTCAAAAATTTGATTGACTGGAAAGTTACTTGATAGATCCAAGCTACAACTTGACTTGAAATAAGCATTGACTTGACTTGCTTGAGACTTGAAGGTTATGACTCGAGTCTTGCTTACGTGTGACATACTCCCATCTCTGCTATCTATTAAGCAGTCAATAAGTAGTGTAATGAGCTAAAAGTCTTGTTAATGGTTTGTTAATAGTGTGACCAAACAATAATTTTCTCTTTTTTTGTACATTCACTGTTATGTGTTGTGCTTTACAG
Seq C2 exon
GTATGATGGTGATAGTTCTGAGAACAGCACAGAGAACTCGGTGGATAAATCTAAAGCCTGGAGCCGATCGATTGAGGATCTCCATGGAGGAAACCACCTCTCGTCTGGCGGCTCAGGCAGTAACATCTCTAGAACCAACAGACATTCAACAATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000012586:ENSDART00000016814:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.580
Domain overlap (PFAM):
C1:
PF063718=Drf_GBD=FE(19.6=100)
A:
NA
C2:
PF063718=Drf_GBD=PD(11.9=32.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGTGCGGGAGTTTCTGAATG
R:
CTTATTGTTGAATGTCTGTTGGTTCT
Band lengths:
238-1824
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]